similar to: S4 method and S3 method with same name: potentially dangerous?

Hello, I have some trouble in achieving the desired parametrisation for the weka classifier functions, using the package RWeka. The problem is, that the functions result=classifier(formula, data, subset, na.action, control = Weka_control(mycontrol)) do not seem to be manipulated by the mycontrol- arguments Perhaps this should be resepected via the handlers- argument , but the

Hello, I have two questions concerning the RWeka package: 1.) First question: How can one perform a cross validation, -say 10fold- for a given data set and given model ? 2.) Second question What is the correct syntax for the parametrization of e.g. Kernel classifiers interface m1 <- SMO(Species ~ ., data = iris, control =

On Tue, 2015-04-21 at 11:46 -0600, Andy Jacobson (NOAA Affiliate) wrote: > Hi, > > I'm encountering trouble compiling caTools_1.17.1.tar.gz and > e1071_1.6-4.tar.gz on a Linux system using the Intel compiler suite. > 14 other packages I generally use installed without any trouble. I > notice both of these trouble packages have a C++ component, so I > wonder if that might

Hello, I'm using recursive SVM script (rSVM - http://www.stanford.edu/group/wonglab/RSVMpage/R-SVM.html ) on some microarray data. The data to be input are log2, as numeric matrix w/ attributes -- str(svm_num_mat) num [1:10, 1:12340] 13.1 13.1 13.1 13.1 13.0 ... - attr(*, "dimnames")=List of 2 ..$ : chr [1:10] "rma_log2_con_sample_1"

Hi Martyn, Thanks for your insight, that seems pretty direct. Unfortunately, I did not compile this version of R (it's on a large supercomputer system and this version of R was installed by the admins). Using "R CMD config", I see the following relevant settings: DYLIB_LD = icc -std=gnu99 DYLIB_LDFLAGS = -shared -openmp LDFLAGS = -L/opt/compilers/intel/cce/9.1.039/lib

Hi all, I'm looking for an efficient solution (speed and memory) for the following problem: Given - a data.frame x containing numbers of type double with nrow(x)>ncol(x) and unique row lables and - a character vector y containing a sorted order labels Now, I'd like to sort the rows of the data.frame x w.r.t. the order of labels in y. example: x <- data.frame(c(1:4),c(5:8))

Hi, I'm encountering trouble compiling caTools_1.17.1.tar.gz and e1071_1.6-4.tar.gz on a Linux system using the Intel compiler suite. 14 other packages I generally use installed without any trouble. I notice both of these trouble packages have a C++ component, so I wonder if that might be the issue. Below, there's information on my platform, compiler, and some diagnostic output showing

** save image Error in loadNamespace(i[[1]], c(lib.loc, .libPaths()), keep.source) : There is no package called 'class' Using 30 May 2004 developer version of R-1.9.0 trying URL `http://cran.r-project.org/src/contrib/e1071_1.4-0.tar.gz' Content type `application/x-tar' length 325388 bytes opened URL .......... .......... .......... .......... .......... ..........

Hi I have submitted a package (rioja) to CRAN. It checks OK for all R versions and OS's except r-release-macosx-ix86 where it fails when checking the examples. Specifically, it fails because R can't find the package vegan which is needed in a function. Here is the snippet from the check results: ### Begin snippet checking examples ... ERROR Running examples in 'rioja-Ex.R'

I am trying to implement a simple r-svm example using the iris data (only two of the classes are taken and data is within the code). I am running into some errors. I am not an expert on svm's. If any one has used it, I would appreciate their help. I am appending the code below. Thanks../Murli ####################################################### ### R-code for R-SVM ### use leave-one-out

In R 1.9.0 running under Solaris 2.9 on a SunBlade 100, with "Sun WorkShop 6 update 2 C++ 5.3 2001/05/15" as the C++ compiler, I just did > install.packages("e1071") The output includes these lines, which I have wrapped to fit nicely in mail: ** libs cc -I/users/local/lib/R/include -I/usr/local/include -KPIC -xlibmil \ -dalign -xO4 -c cmeans.c -o cmeans.o cc

Dear All: I found a problem with the SVM internal cross-validation (CV) accuracy estimation in the e1071 package. File: Rsvm.c Line: 120 Today, it is: int j = rand()%(prob->l-i); Should be: int j = i + rand()%(prob->l-i); The erroneous code doesn't shuffle objects. Instead, it "randomly" moves objects from beginning to the end. In hope for a prompt response from the

Hi! >getNamespaceExports("base") Error in ls(NULL, all = TRUE) : using 'as.environment(NULL)' is defunct getNamespaceExports function (ns) { ns <- asNamespace(ns) if (isBaseNamespace(ns)) ls(NULL, all = TRUE) else ls(getNamespaceInfo(ns, "exports"), all = TRUE) } <environment: namespace:base> One possible way to fix this could be

Hi, we noticed that since some time after Aug 24th the daily snapshots provided on ftp://ftp.stat.math.ethz.ch/Software/R/ no longer have their default tarball file name but dropped the date stamp, i.e. R-devel_.tar.bz2 Same for R-patched snapshots. Could one of the maintainers please take a look. We rely on the default naming convention for automatic builds. Regards, Matthias --

Hi! I'm puzzled by the return value of ifelse consider x<-integer(0) ifelse(is(x, "character"), paste(x), x) [1] NA whereas if (is(x, "character")) return(paste(x)) else x [1] integer(0) or x<-integer(1) ifelse(is(x, "character"), paste(x), x) [1] 0 work as I had anticipated. Is this correct behaviour? Regards, Matthias >sessionInfo() R

Hi, since a couple of days ago I see failures when using R CMD INSTALL -l lib path-to-src/pkg.tar.gz This occurs in automated library updating via a shell script and is caused by the immediate preceding call to leave an 00LOCK folder even though the package installation of that call succeeded. This occurs at random (no obvious/systematic correlation to package name or or such) and only for

Hi, trying to install a package containing C code and requiring non-default configure argument settings the incantation (this has worked for R <= 2.8.1 on the same architectures) R CMD INSTALL --configure-args="--with-opt1 --with-opt2" packname does always result in a warning Warning: unknown option '--with-opt2' and consequently the option is ignored. Reverting the order

Hi! Is it possible to avoid this error condition by specifying a command line option? I haven't found an obvious one in the manual. Background: We are using rsync for a live backup of our home directories. Emails are stored in Maildir format within the homedirectories. The rsync process is running for some time and in the meantime emails get deleted because users still have IMAP access. The

Hi, I encounter a problem with method dispatch with S4 classes, using the 'sealed' parameter in setClass. See that example below: setClass("X",representation(x="numeric"),sealed=TRUE) setGeneric("foo",function(x) standardGeneric("foo")) setMethod("foo",signature("X"),function(x) print("foo(X)")) x <-

Hi! I am currently testing a setup with dovecot's lda, the cmusieve plugin, pysieved and the avelsieve plugin for squirrelmail. The issue I am stumbling upon is that avelsieve is generating folder names including the namespace prefix when creating "fileinto" rules. E.g.: A rule: If the header "Precedence" contains "bulk", then file it into the folder